HEADER CHAPERONE 14-NOV-14 4RTF TITLE CRYSTAL STRUCTURE OF MOLECULAR CHAPERONE DNAK FROM MYCOBACTERIUM TITLE 2 TUBERCULOSIS H37RV COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHAPERONE PROTEIN DNAK; COMPND 3 CHAIN: D; COMPND 4 SYNONYM: HSP70, HEAT SHOCK 70 KDA PROTEIN, HEAT SHOCK PROTEIN 70; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS H37RV; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: DNAK, P425_00363, RVBD_0350, WP_003401814; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG68 KEYWDS STRUCTURAL GENOMICS, PSI-BIOLOGY, MIDWEST CENTER FOR STRUCTURAL KEYWDS 2 GENOMICS, MCSG, STRUCTURES OF MTB PROTEINS CONFERRING SUSCEPTIBILITY KEYWDS 3 TO KNOWN MTB INHIBITORS, MTBI, DNAK, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR E.V.FILIPPOVA,G.MINASOV,O.KIRYUKHINA,M.ENDRES,G.BABNIGG,E.RUBIN, AUTHOR 2 J.SACCHETTINI,A.JOACHIMIAK,W.F.ANDERSON,MIDWEST CENTER FOR AUTHOR 3 STRUCTURAL GENOMICS (MCSG),STRUCTURES OF MTB PROTEINS CONFERRING AUTHOR 4 SUSCEPTIBILITY TO KNOWN MTB INHIBITORS (MTBI) REVDAT 3 20-SEP-23 4RTF 1 REMARK SEQADV REVDAT 2 22-NOV-17 4RTF 1 REMARK REVDAT 1 10-DEC-14 4RTF 0 JRNL AUTH E.V.FILIPPOVA,G.MINASOV,O.KIRYUKHINA,M.ENDRES,G.BABNIGG, JRNL AUTH 2 E.RUBIN,J.SACCHETTINI,A.JOACHIMIAK,W.F.ANDERSON JRNL TITL CRYSTAL STRUCTURE OF MOLECULAR CHAPERONE DNAK FROM JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS H37RV JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0069 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 13970 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 724 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.77 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1001 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 58 REMARK 3 BIN FREE R VALUE : 0.3510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2584 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 32 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.34000 REMARK 3 B22 (A**2) : -0.34000 REMARK 3 B33 (A**2) : 1.12000 REMARK 3 B12 (A**2) : -0.17000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.521 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.330 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.275 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.694 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2649 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3588 ; 2.092 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 347 ; 2.487 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;31.902 ;25.273 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 439 ;14.300 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;11.597 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 423 ; 0.158 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1965 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1397 ; 3.013 ; 2.863 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1741 ; 4.634 ; 4.277 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1250 ; 5.121 ; 3.120 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4109 ; 9.123 ;13.078 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 3 D 355 REMARK 3 ORIGIN FOR THE GROUP (A): 54.5171 -15.7334 -25.2177 REMARK 3 T TENSOR REMARK 3 T11: 0.5912 T22: 0.1166 REMARK 3 T33: 0.1227 T12: 0.1946 REMARK 3 T13: 0.0303 T23: -0.0250 REMARK 3 L TENSOR REMARK 3 L11: 2.1240 L22: 2.9344 REMARK 3 L33: 2.7177 L12: -0.1552 REMARK 3 L13: 0.4193 L23: 0.7773 REMARK 3 S TENSOR REMARK 3 S11: -0.0831 S12: -0.0380 S13: 0.0718 REMARK 3 S21: 0.4534 S22: 0.1222 S23: 0.1539 REMARK 3 S31: 0.4552 S32: -0.1237 S33: -0.0390 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4RTF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000087773. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : BERYLLIUM LENSES REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14714 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.770 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 21.40 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 52.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.77 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 22.00 REMARK 200 R MERGE FOR SHELL (I) : 0.64000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2V7Y REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM CHLORIDE, 0.1 M HEPES, REMARK 280 20% PEG 6000, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.98100 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 89.96200 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 44.98100 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 89.96200 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 44.98100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 89.96200 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 44.98100 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 89.96200 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH D 705 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 717 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET D -31 REMARK 465 HIS D -30 REMARK 465 HIS D -29 REMARK 465 HIS D -28 REMARK 465 HIS D -27 REMARK 465 HIS D -26 REMARK 465 HIS D -25 REMARK 465 SER D -24 REMARK 465 SER D -23 REMARK 465 GLY D -22 REMARK 465 VAL D -21 REMARK 465 ASP D -20 REMARK 465 LEU D -19 REMARK 465 TRP D -18 REMARK 465 SER D -17 REMARK 465 HIS D -16 REMARK 465 PRO D -15 REMARK 465 GLN D -14 REMARK 465 PHE D -13 REMARK 465 GLU D -12 REMARK 465 LYS D -11 REMARK 465 GLY D -10 REMARK 465 THR D -9 REMARK 465 GLU D -8 REMARK 465 ASN D -7 REMARK 465 LEU D -6 REMARK 465 TYR D -5 REMARK 465 PHE D -4 REMARK 465 GLN D -3 REMARK 465 SER D -2 REMARK 465 ASN D -1 REMARK 465 ALA D 0 REMARK 465 MET D 1 REMARK 465 ALA D 2 REMARK 465 GLY D 160 REMARK 465 GLU D 161 REMARK 465 GLU D 185 REMARK 465 ALA D 262 REMARK 465 ASP D 263 REMARK 465 LYS D 264 REMARK 465 GLY D 358 REMARK 465 GLU D 359 REMARK 465 VAL D 360 REMARK 465 LYS D 361 REMARK 465 ASP D 362 REMARK 465 VAL D 363 REMARK 465 LEU D 364 REMARK 465 LEU D 365 REMARK 465 LEU D 366 REMARK 465 ASP D 367 REMARK 465 VAL D 368 REMARK 465 THR D 369 REMARK 465 PRO D 370 REMARK 465 LEU D 371 REMARK 465 SER D 372 REMARK 465 LEU D 373 REMARK 465 GLY D 374 REMARK 465 ILE D 375 REMARK 465 GLU D 376 REMARK 465 THR D 377 REMARK 465 LYS D 378 REMARK 465 GLY D 379 REMARK 465 GLY D 380 REMARK 465 VAL D 381 REMARK 465 MET D 382 REMARK 465 THR D 383 REMARK 465 ARG D 384 REMARK 465 LEU D 385 REMARK 465 ILE D 386 REMARK 465 GLU D 387 REMARK 465 ARG D 388 REMARK 465 ASN D 389 REMARK 465 THR D 390 REMARK 465 THR D 391 REMARK 465 ILE D 392 REMARK 465 PRO D 393 REMARK 465 THR D 394 REMARK 465 LYS D 395 REMARK 465 ARG D 396 REMARK 465 SER D 397 REMARK 465 GLU D 398 REMARK 465 THR D 399 REMARK 465 PHE D 400 REMARK 465 THR D 401 REMARK 465 THR D 402 REMARK 465 ALA D 403 REMARK 465 ASP D 404 REMARK 465 ASP D 405 REMARK 465 ASN D 406 REMARK 465 GLN D 407 REMARK 465 PRO D 408 REMARK 465 SER D 409 REMARK 465 VAL D 410 REMARK 465 GLN D 411 REMARK 465 ILE D 412 REMARK 465 GLN D 413 REMARK 465 VAL D 414 REMARK 465 TYR D 415 REMARK 465 GLN D 416 REMARK 465 GLY D 417 REMARK 465 GLU D 418 REMARK 465 ARG D 419 REMARK 465 GLU D 420 REMARK 465 ILE D 421 REMARK 465 ALA D 422 REMARK 465 ALA D 423 REMARK 465 HIS D 424 REMARK 465 ASN D 425 REMARK 465 LYS D 426 REMARK 465 LEU D 427 REMARK 465 LEU D 428 REMARK 465 GLY D 429 REMARK 465 SER D 430 REMARK 465 PHE D 431 REMARK 465 GLU D 432 REMARK 465 LEU D 433 REMARK 465 THR D 434 REMARK 465 GLY D 435 REMARK 465 ILE D 436 REMARK 465 PRO D 437 REMARK 465 PRO D 438 REMARK 465 ALA D 439 REMARK 465 PRO D 440 REMARK 465 ARG D 441 REMARK 465 GLY D 442 REMARK 465 ILE D 443 REMARK 465 PRO D 444 REMARK 465 GLN D 445 REMARK 465 ILE D 446 REMARK 465 GLU D 447 REMARK 465 VAL D 448 REMARK 465 THR D 449 REMARK 465 PHE D 450 REMARK 465 ASP D 451 REMARK 465 ILE D 452 REMARK 465 ASP D 453 REMARK 465 ALA D 454 REMARK 465 ASN D 455 REMARK 465 GLY D 456 REMARK 465 ILE D 457 REMARK 465 VAL D 458 REMARK 465 HIS D 459 REMARK 465 VAL D 460 REMARK 465 THR D 461 REMARK 465 ALA D 462 REMARK 465 LYS D 463 REMARK 465 ASP D 464 REMARK 465 LYS D 465 REMARK 465 GLY D 466 REMARK 465 THR D 467 REMARK 465 GLY D 468 REMARK 465 LYS D 469 REMARK 465 GLU D 470 REMARK 465 ASN D 471 REMARK 465 THR D 472 REMARK 465 ILE D 473 REMARK 465 ARG D 474 REMARK 465 ILE D 475 REMARK 465 GLN D 476 REMARK 465 GLU D 477 REMARK 465 GLY D 478 REMARK 465 SER D 479 REMARK 465 GLY D 480 REMARK 465 LEU D 481 REMARK 465 SER D 482 REMARK 465 LYS D 483 REMARK 465 GLU D 484 REMARK 465 ASP D 485 REMARK 465 ILE D 486 REMARK 465 ASP D 487 REMARK 465 ARG D 488 REMARK 465 MET D 489 REMARK 465 ILE D 490 REMARK 465 LYS D 491 REMARK 465 ASP D 492 REMARK 465 ALA D 493 REMARK 465 GLU D 494 REMARK 465 ALA D 495 REMARK 465 HIS D 496 REMARK 465 ALA D 497 REMARK 465 GLU D 498 REMARK 465 GLU D 499 REMARK 465 ASP D 500 REMARK 465 ARG D 501 REMARK 465 LYS D 502 REMARK 465 ARG D 503 REMARK 465 ARG D 504 REMARK 465 GLU D 505 REMARK 465 GLU D 506 REMARK 465 ALA D 507 REMARK 465 ASP D 508 REMARK 465 VAL D 509 REMARK 465 ARG D 510 REMARK 465 ASN D 511 REMARK 465 GLN D 512 REMARK 465 ALA D 513 REMARK 465 GLU D 514 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ILE D 81 CD1 REMARK 470 LYS D 84 CE NZ REMARK 470 THR D 87 OG1 CG2 REMARK 470 ILE D 95 CD1 REMARK 470 ARG D 101 NH1 NH2 REMARK 470 ASP D 102 OD1 OD2 REMARK 470 ILE D 111 CD1 REMARK 470 LYS D 159 CG CD CE NZ REMARK 470 LYS D 162 CB CG CD CE NZ REMARK 470 ARG D 165 CD NE CZ NH1 NH2 REMARK 470 VAL D 188 CG1 REMARK 470 ARG D 191 CZ NH1 NH2 REMARK 470 THR D 225 CG2 REMARK 470 LYS D 228 CE NZ REMARK 470 ARG D 235 NH2 REMARK 470 VAL D 260 CG1 REMARK 470 PHE D 268 CE1 CE2 CZ REMARK 470 GLN D 272 OE1 NE2 REMARK 470 LEU D 273 CD1 CD2 REMARK 470 ILE D 281 CG2 CD1 REMARK 470 ILE D 297 CG2 REMARK 470 ILE D 302 CG2 REMARK 470 SER D 303 OG REMARK 470 LYS D 327 CG CD CE NZ REMARK 470 THR D 330 CG2 REMARK 470 LYS D 357 CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ALA D 43 CB - CA - C ANGL. DEV. = 9.4 DEGREES REMARK 500 TYR D 257 CA - CB - CG ANGL. DEV. = -11.7 DEGREES REMARK 500 ASP D 342 CB - CG - OD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN D 45 -38.77 -169.31 REMARK 500 ASP D 82 -116.00 48.98 REMARK 500 THR D 112 -7.17 -147.30 REMARK 500 ARG D 143 -165.56 -128.63 REMARK 500 ILE D 144 110.46 -162.10 REMARK 500 SER D 247 -38.68 -134.33 REMARK 500 TYR D 257 73.72 29.61 REMARK 500 TYR D 257 70.26 33.49 REMARK 500 THR D 259 -168.77 -163.56 REMARK 500 VAL D 260 -156.81 -145.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 ATP D 601 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP D 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 D 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MCSG-APC105725 RELATED DB: TARGETTRACK DBREF 4RTF D 1 514 UNP I6Y7L1 I6Y7L1_MYCTU 1 514 SEQADV 4RTF MET D -31 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -30 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -29 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -28 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -27 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -26 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -25 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF SER D -24 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF SER D -23 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF GLY D -22 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF VAL D -21 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF ASP D -20 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF LEU D -19 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF TRP D -18 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF SER D -17 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF HIS D -16 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF PRO D -15 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF GLN D -14 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF PHE D -13 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF GLU D -12 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF LYS D -11 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF GLY D -10 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF THR D -9 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF GLU D -8 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF ASN D -7 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF LEU D -6 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF TYR D -5 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF PHE D -4 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF GLN D -3 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF SER D -2 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF ASN D -1 UNP I6Y7L1 EXPRESSION TAG SEQADV 4RTF ALA D 0 UNP I6Y7L1 EXPRESSION TAG SEQRES 1 D 546 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 D 546 TRP SER HIS PRO GLN PHE GLU LYS GLY THR GLU ASN LEU SEQRES 3 D 546 TYR PHE GLN SER ASN ALA MET ALA ARG ALA VAL GLY ILE SEQRES 4 D 546 ASP LEU GLY THR THR ASN SER VAL VAL SER VAL LEU GLU SEQRES 5 D 546 GLY GLY ASP PRO VAL VAL VAL ALA ASN SER GLU GLY SER SEQRES 6 D 546 ARG THR THR PRO SER ILE VAL ALA PHE ALA ARG ASN GLY SEQRES 7 D 546 GLU VAL LEU VAL GLY GLN PRO ALA LYS ASN GLN ALA VAL SEQRES 8 D 546 THR ASN VAL ASP ARG THR VAL ARG SER VAL LYS ARG HIS SEQRES 9 D 546 MET GLY SER ASP TRP SER ILE GLU ILE ASP GLY LYS LYS SEQRES 10 D 546 TYR THR ALA PRO GLU ILE SER ALA ARG ILE LEU MET LYS SEQRES 11 D 546 LEU LYS ARG ASP ALA GLU ALA TYR LEU GLY GLU ASP ILE SEQRES 12 D 546 THR ASP ALA VAL ILE THR THR PRO ALA TYR PHE ASN ASP SEQRES 13 D 546 ALA GLN ARG GLN ALA THR LYS ASP ALA GLY GLN ILE ALA SEQRES 14 D 546 GLY LEU ASN VAL LEU ARG ILE VAL ASN GLU PRO THR ALA SEQRES 15 D 546 ALA ALA LEU ALA TYR GLY LEU ASP LYS GLY GLU LYS GLU SEQRES 16 D 546 GLN ARG ILE LEU VAL PHE ASP LEU GLY GLY GLY THR PHE SEQRES 17 D 546 ASP VAL SER LEU LEU GLU ILE GLY GLU GLY VAL VAL GLU SEQRES 18 D 546 VAL ARG ALA THR SER GLY ASP ASN HIS LEU GLY GLY ASP SEQRES 19 D 546 ASP TRP ASP GLN ARG VAL VAL ASP TRP LEU VAL ASP LYS SEQRES 20 D 546 PHE LYS GLY THR SER GLY ILE ASP LEU THR LYS ASP LYS SEQRES 21 D 546 MET ALA MET GLN ARG LEU ARG GLU ALA ALA GLU LYS ALA SEQRES 22 D 546 LYS ILE GLU LEU SER SER SER GLN SER THR SER ILE ASN SEQRES 23 D 546 LEU PRO TYR ILE THR VAL ASP ALA ASP LYS ASN PRO LEU SEQRES 24 D 546 PHE LEU ASP GLU GLN LEU THR ARG ALA GLU PHE GLN ARG SEQRES 25 D 546 ILE THR GLN ASP LEU LEU ASP ARG THR ARG LYS PRO PHE SEQRES 26 D 546 GLN SER VAL ILE ALA ASP THR GLY ILE SER VAL SER GLU SEQRES 27 D 546 ILE ASP HIS VAL VAL LEU VAL GLY GLY SER THR ARG MET SEQRES 28 D 546 PRO ALA VAL THR ASP LEU VAL LYS GLU LEU THR GLY GLY SEQRES 29 D 546 LYS GLU PRO ASN LYS GLY VAL ASN PRO ASP GLU VAL VAL SEQRES 30 D 546 ALA VAL GLY ALA ALA LEU GLN ALA GLY VAL LEU LYS GLY SEQRES 31 D 546 GLU VAL LYS ASP VAL LEU LEU LEU ASP VAL THR PRO LEU SEQRES 32 D 546 SER LEU GLY ILE GLU THR LYS GLY GLY VAL MET THR ARG SEQRES 33 D 546 LEU ILE GLU ARG ASN THR THR ILE PRO THR LYS ARG SER SEQRES 34 D 546 GLU THR PHE THR THR ALA ASP ASP ASN GLN PRO SER VAL SEQRES 35 D 546 GLN ILE GLN VAL TYR GLN GLY GLU ARG GLU ILE ALA ALA SEQRES 36 D 546 HIS ASN LYS LEU LEU GLY SER PHE GLU LEU THR GLY ILE SEQRES 37 D 546 PRO PRO ALA PRO ARG GLY ILE PRO GLN ILE GLU VAL THR SEQRES 38 D 546 PHE ASP ILE ASP ALA ASN GLY ILE VAL HIS VAL THR ALA SEQRES 39 D 546 LYS ASP LYS GLY THR GLY LYS GLU ASN THR ILE ARG ILE SEQRES 40 D 546 GLN GLU GLY SER GLY LEU SER LYS GLU ASP ILE ASP ARG SEQRES 41 D 546 MET ILE LYS ASP ALA GLU ALA HIS ALA GLU GLU ASP ARG SEQRES 42 D 546 LYS ARG ARG GLU GLU ALA ASP VAL ARG ASN GLN ALA GLU HET ATP D 601 9 HET PG4 D 602 13 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 2 ATP C10 H16 N5 O13 P3 FORMUL 3 PG4 C8 H18 O5 FORMUL 4 HOH *32(H2 O) HELIX 1 1 GLY D 51 ALA D 58 1 8 HELIX 2 2 ASN D 61 ASP D 63 5 3 HELIX 3 3 VAL D 69 MET D 73 5 5 HELIX 4 4 ALA D 88 GLY D 108 1 21 HELIX 5 5 ASN D 123 ALA D 137 1 15 HELIX 6 6 GLU D 147 TYR D 155 1 9 HELIX 7 7 GLY D 200 GLY D 221 1 22 HELIX 8 8 ASP D 227 LEU D 245 1 19 HELIX 9 9 ARG D 275 ILE D 281 1 7 HELIX 10 10 THR D 282 ARG D 288 1 7 HELIX 11 11 THR D 289 GLY D 301 1 13 HELIX 12 12 SER D 303 ILE D 307 5 5 HELIX 13 13 GLY D 314 ARG D 318 5 5 HELIX 14 14 MET D 319 THR D 330 1 12 HELIX 15 15 GLU D 343 LYS D 357 1 15 SHEET 1 A 3 ASP D 23 VAL D 26 0 SHEET 2 A 3 ASN D 13 GLU D 20 -1 N VAL D 18 O VAL D 25 SHEET 3 A 3 THR D 36 PRO D 37 -1 O THR D 36 N SER D 14 SHEET 1 B 5 ASP D 23 VAL D 26 0 SHEET 2 B 5 ASN D 13 GLU D 20 -1 N VAL D 18 O VAL D 25 SHEET 3 B 5 VAL D 5 LEU D 9 -1 N GLY D 6 O SER D 17 SHEET 4 B 5 ASP D 113 THR D 118 1 O VAL D 115 N VAL D 5 SHEET 5 B 5 ASN D 140 ASN D 146 1 O VAL D 145 N THR D 118 SHEET 1 C 3 VAL D 48 VAL D 50 0 SHEET 2 C 3 ILE D 39 PHE D 42 -1 N ALA D 41 O LEU D 49 SHEET 3 C 3 THR D 65 ARG D 67 -1 O VAL D 66 N VAL D 40 SHEET 1 D 2 SER D 78 ILE D 81 0 SHEET 2 D 2 LYS D 84 THR D 87 -1 O LYS D 84 N ILE D 81 SHEET 1 E 4 VAL D 188 ASP D 196 0 SHEET 2 E 4 PHE D 176 ILE D 183 -1 N GLU D 182 O GLU D 189 SHEET 3 E 4 GLN D 164 LEU D 171 -1 N ASP D 170 O ASP D 177 SHEET 4 E 4 HIS D 309 VAL D 313 1 O HIS D 309 N LEU D 167 SHEET 1 F 2 SER D 250 THR D 259 0 SHEET 2 F 2 LEU D 267 THR D 274 -1 O LEU D 269 N LEU D 255 SITE 1 AC1 9 ASP D 8 GLY D 10 THR D 11 LYS D 70 SITE 2 AC1 9 GLU D 147 ASP D 170 THR D 175 HOH D 714 SITE 3 AC1 9 HOH D 721 SITE 1 AC2 3 ARG D 207 ARG D 280 ILE D 281 CRYST1 117.866 117.866 134.943 90.00 90.00 120.00 P 64 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008484 0.004898 0.000000 0.00000 SCALE2 0.000000 0.009797 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007411 0.00000